{
  "abstract": "Graph-based protein function analysis is powerful, but protein-protein interaction (PPI) networks exist for only a small fraction of animal and plant genomes. We present LoGoPPI, which infers PPIs from sequence by combining bi-encoder global protein representation with local residue-level late interaction. LoGoPPI matches or exceeds state-of-the-art PLM-based cross-encoders while achieving orders-of-magnitude faster inference, up to ~1,500-fold, and its local branch provides residue-level signals associated with interaction interfaces and structurally flexible regions. This efficiency enables practical proteome-wide PPI reconstruction at scales prohibitive for cross-encoder models, potentially extending interactome mapping to tens of thousands of animal and plant species. LoGoPPI thus provides a scalable framework for comparative and functional analysis of protein networks across diverse taxa.",
  "abstract_shown": true,
  "affiliations": [
    "Yonsei University"
  ],
  "article_type": "New results",
  "arxiv": null,
  "author_total": 5,
  "authors": [
    {
      "affs": [
        0
      ],
      "name": "H. B. Lee"
    },
    {
      "name": "J. Ma"
    },
    {
      "name": "H.-J. Kim"
    },
    {
      "name": "K. Song"
    },
    {
      "affs": [
        0
      ],
      "name": "I. Lee"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/593f3mqq9dsch.bib",
  "cited_by": 0,
  "doi": "10.64898/2026.09.20.753039",
  "fulltext_url": "https://www.biorxiv.org/content/10.64898/2026.09.20.753039v1.full",
  "id": "593f3mqq9dsch",
  "issns": [],
  "landing_url": "https://www.biorxiv.org/content/10.64898/2026.09.20.753039v1",
  "language": null,
  "licence": "CC-BY",
  "licence_label": "CC BY",
  "licence_source": "article",
  "licence_url": "https://creativecommons.org/licenses/by/4.0/",
  "metadata_licence": null,
  "native_subjects": [
    [
      "biorxiv",
      "bioinformatics"
    ],
    [
      "openalex",
      "1312|Bioinformatics and Genomic Networks"
    ]
  ],
  "openalex": "W7214381685",
  "pdf_url": "https://www.biorxiv.org/content/10.64898/2026.09.20.753039v1.full.pdf",
  "pmcid": null,
  "pmid": null,
  "published": "2026-09-20",
  "publisher": null,
  "ris": "https://research.draconitic.com/paper/593f3mqq9dsch.ris",
  "sources": [
    {
      "first_seen": "2026-10-30T12:24:35Z",
      "native_id": "10.64898/2026.09.20.753039",
      "source": "biorxiv",
      "url": "https://www.biorxiv.org/content/10.64898/2026.09.20.753039v1"
    }
  ],
  "subjects": [
    {
      "field": "biology",
      "origin": "biorxiv:bioinformatics",
      "subfield": "bioinformatics"
    }
  ],
  "title": "LoGoPPI enables fast and accurate protein protein interaction mapping at scale",
  "title_text": "LoGoPPI enables fast and accurate protein protein interaction mapping at scale",
  "type": "preprint",
  "updated_at": "2026-10-30T12:24:35Z",
  "url": "https://research.draconitic.com/paper/593f3mqq9dsch",
  "venue": "bioRxiv",
  "versions": []
}